Gallo-Franco Jenny Johana, Ghneim-Herrera Thaura, Tobar-Tosse Fabian, Romero Miguel, Chaura Juliana, Quimbaya Mauricio
Departamento de Ciencias Naturales y Matemáticas Pontificia Universidad Javeriana Cali Cali Colombia.
Departamento de Ciencias Biológicas Universidad ICESI Cali Colombia.
Plant Direct. 2022 Aug 26;6(8):e430. doi: 10.1002/pld3.430. eCollection 2022 Aug.
Epigenetic mechanisms in crops have emerged as a fundamental factor in plant adaptation and acclimation to biotic and abiotic stresses. Among described epigenetic mechanisms, DNA methylation has been defined as the most studied epigenetic modification involved in several developmental processes. It has been shown that contrasting methylation marks are associated with gene expression variations between cultivated and wild crop species. In this study, we analyzed single-base resolution methylome maps for (a cultivated species) and (a wild species) genotypes grown under control conditions. Our results showed that overall, genome-wide methylation profiles are mainly conserved between both species, nevertheless, there are several differentially methylated regions with species-specific methylation patterns. In addition, we analyzed the association of identified DNA methylation marks in relation with Aluminum-tolerance levels of studied genotypes. We found several differentially methylated regions (DMRs) and DMR-associated genes (DAGs) that are linked with Al tolerance. Some of these DAGs have been previously reported as differentially expressed under Al exposure in . Complementarily a Transposable Elements (TE) analysis revealed that specific aluminum related genes have associated-TEs potentially regulated by DNA methylation. Interestingly, the DMRs and DAGs between Al-tolerant and susceptible genotypes were different between and , suggesting that methylation patterns related to Al responses are unique for each rice species. Our findings provide novel insights into DNA methylation patterns in wild and cultivated rice genotypes and their possible role in the regulation of plant stress responses.
作物中的表观遗传机制已成为植物适应和应对生物及非生物胁迫的一个基本因素。在已描述的表观遗传机制中，DNA甲基化被定义为参与多个发育过程且研究最多的表观遗传修饰。研究表明，不同的甲基化标记与栽培作物和野生作物品种之间的基因表达差异有关。在本研究中，我们分析了在对照条件下生长的（一个栽培品种）和（一个野生品种）基因型的单碱基分辨率甲基化组图谱。我们的结果表明，总体而言，两个物种之间全基因组甲基化谱主要是保守的，然而，存在几个具有物种特异性甲基化模式的差异甲基化区域。此外，我们分析了已鉴定的DNA甲基化标记与所研究基因型耐铝水平的相关性。我们发现了几个与耐铝性相关的差异甲基化区域（DMR）和DMR相关基因（DAG）。其中一些DAG此前已报道在铝胁迫下在中差异表达。作为补充，转座元件（TE）分析表明，特定的铝相关基因具有可能受DNA甲基化调控的相关TE。有趣的是，耐铝和敏感基因型之间的DMR和DAG在和之间是不同的，这表明与铝反应相关的甲基化模式对每个水稻品种都是独特的。我们的研究结果为野生和栽培水稻基因型中的DNA甲基化模式及其在植物应激反应调控中的可能作用提供了新的见解。
